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NC_004689.1__NP_818615.1__Barnyardp077__00077

Bact-Vir

NC_004689.1__NP_818615.1__Barnyardp077__00077

Identity

Accession:
NC_004689 ↗
Kingdom:
phage

Quality

67.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Barnyardvirus› Mycobacterium_phage_Barnyard

TaxID: 205880

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 31-95
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4aghA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.67 42.0 3.93e-01 95.4% 51.2%
2be3B01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.65 52.0 4.09e-01 87.7% 85.9%
3u2sC00 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.64 39.0 3.50e-01 90.8% 44.4%
2qkpD00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.63 41.0 3.26e-01 78.5% 32.1%
1vwxT01 2.30.30.70 Mainly Beta › Roll › SH3 type barrels. › Ribosomal protein L21 0.63 52.0 4.55e-01 98.5% 60.8%
3kojB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.63 51.0 4.58e-01 92.3% 64.4%
6fgjA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.62 49.0 3.78e-01 87.7% 85.3%
1pfsA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.62 43.0 4.10e-01 90.8% 61.5%
4by6B00 2.30.30.1020 Mainly Beta › Roll › SH3 type barrels. › CCR4-NOT complex subunit 2/3/5, C-terminal domain 0.61 46.0 3.52e-01 95.4% 33.1%
4gnxC03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 48.0 3.55e-01 89.2% 52.5%
4c0dB00 2.30.30.1020 Mainly Beta › Roll › SH3 type barrels. › CCR4-NOT complex subunit 2/3/5, C-terminal domain 0.60 46.0 3.38e-01 98.5% 29.3%
2qkdA03 2.20.25.420 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ZPR1, zinc finger domain 0.60 39.0 4.30e-01 89.2% 86.3%
3en2A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 48.0 4.40e-01 92.3% 96.7%
3butA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 46.0 3.72e-01 84.6% 92.8%
1v1qA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 48.0 4.09e-01 92.3% 87.3%
4c0fC00 2.30.30.1020 Mainly Beta › Roll › SH3 type barrels. › CCR4-NOT complex subunit 2/3/5, C-terminal domain 0.59 45.0 3.85e-01 98.5% 50.0%
3hk4A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 48.0 3.97e-01 92.3% 82.2%
2krtA01 3.10.450.270 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.57 45.0 3.94e-01 87.7% 88.3%
3upuA03 2.30.30.780 Mainly Beta › Roll › SH3 type barrels. › 0.57 49.0 3.94e-01 96.9% 93.9%
3k8aB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 47.0 4.11e-01 93.8% 90.3%
6u5vB07 3.30.1120.100 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.56 35.0 2.84e-01 86.2% 31.8%
2w38A01 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.56 46.0 2.98e-01 93.8% 26.0%
4inaA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.55 43.0 3.16e-01 89.2% 92.9%
5dstA02 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.54 43.0 3.22e-01 90.8% 97.2%
2rs7A01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.53 42.0 4.09e-01 89.2% 83.8%
4kh9B02 2.60.40.1930 Mainly Beta › Sandwich › Immunoglobulin-like › Macroglobulin (MG2) domain 0.53 41.0 3.47e-01 86.2% 85.8%
5mu3B00 3.40.50.12050 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 38.0 2.83e-01 75.4% 50.3%
3hn3A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 40.0 3.52e-01 87.7% 92.3%
2nlkA02 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.51 39.0 2.67e-01 84.6% 22.7%
4f3lA03 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 40.0 3.45e-01 93.8% 71.3%
1s0wC01 3.30.1450.10 Alpha Beta › 2-Layer Sandwich › Beta-lactamase Inhibitory Protein; Chain:B, domain 1 › 0.50 42.0 3.79e-01 93.8% 86.8%
3r0qA02 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.50 40.0 2.90e-01 90.8% 97.1%
1tzzB01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.50 37.0 3.13e-01 81.5% 89.1%
1clwA00 2.160.20.20 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.50 36.0 2.13e-01 81.5% 9.0%
ECOD (62)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4880181 1061.1.1.1 ↗ a+b two layers › gp120 inner domain › gp120 inner domain › gp120 inner domain › GP120 0.67 50.0 3.95e-01 92.3% 38.8%
3272363 4.1.1.219 ↗ beta barrels › SH3 › SH3 › SH3 › LSM12_LSM 0.65 53.0 4.74e-01 100.0% 62.1%
3284948 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.65 52.0 4.77e-01 89.2% 80.0%
4483091 4.1.1.1 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_1 0.64 57.0 4.85e-01 100.0% 63.8%
3925915 809.2.1.0 ↗ a+b two layers › BLIP-like › BT0923-like › BT0923-like 0.64 45.0 4.98e-01 87.7% 98.0%
3850937 4004.1.1.10 ↗ beta sandwiches › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › PI3K_1B_p101 0.63 55.0 4.06e-01 100.0% 51.7%
3789933 11.10.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like 0.63 42.0 3.64e-01 78.5% 42.9%
4096366 330.6.1.1 ↗ a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.63 51.0 4.08e-01 87.7% 90.4%
3229184 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 55.0 5.08e-01 100.0% 91.8%
3691620 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.62 52.0 4.44e-01 100.0% 65.2%
3427602 5.1.3.67 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.62 51.0 3.31e-01 93.8% 22.2%
3602665 832.1.1.1 ↗ a+b three layers › N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 › N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 › N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 › eRF1_1 0.61 50.0 3.98e-01 92.3% 87.9%
3720815 4.1.1.225 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7025 0.61 51.0 4.41e-01 100.0% 67.0%
3586434 4.1.1.41 ↗ beta barrels › SH3 › SH3 › SH3 › NOT2_3_5_C 0.61 47.0 3.63e-01 98.5% 35.0%
3600130 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.61 51.0 3.26e-01 92.3% 41.2%
3471363 4.1.1.41 ↗ beta barrels › SH3 › SH3 › SH3 › NOT2_3_5_C 0.61 46.0 3.48e-01 98.5% 31.4%
3726237 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.61 50.0 3.00e-01 92.3% 22.1%
3709897 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.60 44.0 3.90e-01 78.5% 66.3%
3966797 283.2.1.1 ↗ a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › GPW_gp25 0.60 48.0 4.04e-01 89.2% 87.0%
3744711 4.1.1.41 ↗ beta barrels › SH3 › SH3 › SH3 › NOT2_3_5_C 0.60 47.0 3.53e-01 100.0% 32.9%
4020511 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 46.0 3.70e-01 96.9% 40.0%
5063726 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 44.0 3.92e-01 92.3% 53.5%
3917042 214.1.1.7 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2_1 0.60 45.0 3.60e-01 83.1% 60.7%
3281968 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.59 49.0 4.33e-01 92.3% 64.2%
3577471 221.13.1.0 ↗ a+b two layers › beta-Grasp › Mitochondrial calcium uniporter N-terminal domain › Mitochondrial calcium uniporter N-terminal domain 0.59 44.0 3.55e-01 81.5% 90.0%
1108456 4.1.1.41 ↗ beta barrels › SH3 › SH3 › SH3 › NOT2_3_5_C 0.59 45.0 3.89e-01 98.5% 51.9%
3834563 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.58 47.0 4.49e-01 100.0% 75.0%
3550635 295.1.1.4 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › COMM_domain 0.58 44.0 4.31e-01 83.1% 82.9%
3811535 331.3.1.28 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › DUF220 0.58 47.0 3.84e-01 90.8% 56.8%
3710585 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.58 48.0 3.89e-01 90.8% 67.5%
3255739 295.1.1.4 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › COMM_domain 0.58 44.0 4.35e-01 84.6% 80.0%
5028249 5090.1.1.0 ↗ beta complex topology › Viral glycoprotein, central and dimerisation domains-like › Viral glycoprotein, central and dimerisation domains › Viral glycoprotein, central and dimerisation domains 0.57 48.0 4.06e-01 96.9% 95.6%
3914410 295.1.1.4 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › COMM_domain 0.57 45.0 4.37e-01 87.7% 79.7%
1829536 6173.1.1.0 ↗ beta barrels › V1/V2 domain in HIV gp120 › V1/V2 domain in HIV gp120 › V1/V2 domain in HIV gp120 0.57 40.0 4.34e-01 83.1% 94.1%
3628355 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.57 45.0 2.90e-01 87.7% 34.9%
3483729 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.57 44.0 3.71e-01 87.7% 71.7%
3623547 295.1.1.4 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › COMM_domain 0.57 43.0 4.25e-01 84.6% 81.4%
3251381 295.1.1.4 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › COMM_domain 0.56 43.0 4.35e-01 84.6% 86.2%
4026265 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 43.0 3.92e-01 89.2% 81.1%
3173646 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.56 44.0 3.38e-01 89.2% 60.0%
3222710 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.56 42.0 4.01e-01 84.6% 71.8%
3236475 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.55 43.0 3.53e-01 89.2% 70.4%
3534592 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 36.0 3.85e-01 73.8% 78.2%
3226909 331.15.1.0 ↗ a+b two layers › TBP-like › Anti-CRISPR protein AcrID1 › Anti-CRISPR protein AcrID1 0.55 44.0 4.24e-01 100.0% 77.3%
3407209 4.1.1.41 ↗ beta barrels › SH3 › SH3 › SH3 › NOT2_3_5_C 0.55 43.0 3.25e-01 96.9% 32.6%
3969155 283.2.1.1 ↗ a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › GPW_gp25 0.55 42.0 3.28e-01 87.7% 76.1%
3925731 4.1.1.41 ↗ beta barrels › SH3 › SH3 › SH3 › NOT2_3_5_C 0.54 41.0 3.10e-01 98.5% 30.3%
3641990 295.1.1.39 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › DUF4371 0.54 43.0 4.15e-01 90.8% 98.7%
3301049 4272.1.1.1 ↗ a+b two layers › Nqo5-like › Nqo5-like › Nqo5-like › Complex1_30kDa 0.54 45.0 3.75e-01 95.4% 59.2%
3996695 3256.1.1.0 ↗ a+b two layers › DUF2233 N-terminal domain › DUF2233 N-terminal domain › DUF2233 N-terminal domain 0.53 39.0 4.07e-01 87.7% 94.5%
3784232 277.1.1.0 ↗ a+b two layers › PX domain › PX domain › PX domain 0.53 42.0 3.29e-01 87.7% 67.6%
4000227 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 39.0 3.54e-01 81.5% 92.6%
4990492 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 37.0 4.03e-01 87.7% 98.0%
3993690 216.1.1.35 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › Rgr-1_C 0.53 44.0 3.01e-01 95.4% 51.2%
3306580 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 43.0 4.41e-01 92.3% 98.3%
3497397 395.1.1.0 ↗ few secondary structure elements › Midkine-related › Midkine-related › Midkine-related 0.52 33.0 3.23e-01 75.4% 56.0%
4330094 330.4.1.1 ↗ a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.52 45.0 4.06e-01 98.5% 72.2%
3871082 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.52 40.0 3.15e-01 87.7% 60.7%
4002086 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 34.0 2.64e-01 78.5% 29.3%
3196407 7026.1.1.5 ↗ beta meanders › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 › ATG2_CAD 0.51 38.0 2.66e-01 84.6% 38.4%
3212498 243.3.1.70 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › PF30099 0.50 39.0 3.62e-01 90.8% 68.9%
3459363 243.3.1.74 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › DUF1668 0.50 38.0 3.57e-01 84.6% 85.9%